Figure 2

Nucleotide level comparison of P. aeruginosa Mu-like phage genomes. The P. aeruginosa Mu-like phage genomes of A) PaMx73 and B), DMS3 were aligned with their relatives using BLASTn. The query genome is represented by the continuous grey bar and the subject genomes are displayed as discontinuous red bars. Location of Regions of Genomic Plasticity (RGPs) is indicated in each query genome. The fine grey line gaps in the red bars represent non homologous regions to the query genome. Some of these gaps coincide with lows in the graph of GC content distribution shown above the query genomes. The percentage of overall nucleotide sequence identity relative to the query genome is shown on the right margin for each phage sequence. The scale below the alignments represents length in nucleotides. Putative promoters identified in PaMx73 are marked with black arrows above and below the corresponding genome. C) Neighbor-joining tree of the P. aeruginosa Mu-like phage genomes based on a multiple alignment performed with the Mauve program. The numbers at the branch points indicate the bootstrap values represented as the percentage observed from 1000 replicas. The tree topology separates the compared phage genomes in two similarity groups whose prototypes are PaMx73 and DMS3. The country of isolation for each phage sequence is indicated on the right of figure along with the similarity group designation.